Hi Étienne, On Thu, May 07, 2020 at 11:24:00PM +0200, Étienne Mollier wrote: > I've been quietly chiseling the packaging of virusseeker-virome, > but I missed the proper RepeatMasker dependency in the initial > list; Debian provides a few packages related to that software, > and I mistakenly thought it was available already. For > reference, it is the software available at: > > http://www.repeatmasker.org/RMDownload.html
Thanks a lot for checking. > Unfortunately, I understand that it is licensed under OSL 2.1, > and that this license does not look DFSG compliant, nor seems > compatible with the GPL: > > > https://wiki.debian.org/DFSGLicenses#Open_Software_License_.28OSL.29_v1.1 > https://www.gnu.org/licenses/license-list.html#OSL > > At some point, I wondered if it would be possible to get > RepeatMasker into "non-free", and having VirusSeeker into > "contrib" then, but I'm not sure that this is legally doable > since VirusSeeker is GPL. > > Have you already met similar situation in the past ? > If so, how has it been dealt with ? Hmmm, I do not remember but non-free is ugly for several technical reasons (no autobuilders, no autopkgtests, no QA checks etc.) Thus the first thing I do is contacting upstream to consider changing their license. Would you mind doing so? If yes, I would consider mentioning our COVID-19 sprint and that a free license would support us in our fight against the pandemic. Kind regards Andreas. > mer...@debian.org, on 2020-04-10 07:40:42 +0300: > > 1. Replace hard-coded database paths with environment variables, say, > > VIRUSSEEKER_NCBI_NT. Then prior to running the VirusSeeker the user > > would need to download the databases and set these environment variables > > to their locations. > > > > 2. Make their paths configurable via a configuration file (under /etc, > > possibly) listing paths for the databases. After installing the Debian > > package, the user would have to edit this configuration file to point to > > the database locations. > > Hi Andrius, > > Thank you for your thoughts, even if I'm a bit late. Reading > through the script, even using environment variables, there is > a quite big share of hard-coded paths, so would probably attempt > to contact upstream in any case. > > Kind Regards, > -- > Étienne Mollier <etienne.moll...@mailoo.org> > Fingerprint: 5ab1 4edf 63bb ccff 8b54 2fa9 59da 56fe fff3 882d > Help find cures against the Covid-19 ! Give CPU cycles: > * Rosetta@home: https://boinc.bakerlab.org/rosetta/ > * Folding@home: https://foldingathome.org/ -- http://fam-tille.de
